Coming full circle: On the origin and evolution of the looping model for enhancer–promoter communication
出版年份 2022 全文链接
标题
Coming full circle: On the origin and evolution of the looping model for enhancer–promoter communication
作者
关键词
-
出版物
JOURNAL OF BIOLOGICAL CHEMISTRY
Volume 298, Issue 8, Pages 102117
出版商
Elsevier BV
发表日期
2022-06-10
DOI
10.1016/j.jbc.2022.102117
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注意:仅列出部分参考文献,下载原文获取全部文献信息。- Cohesin-dependence of neuronal gene expression relates to chromatin loop length
- (2022) Lesly Calderon et al. eLife
- Building regulatory landscapes reveals that an enhancer can recruit cohesin to create contact domains, engage CTCF sites and activate distant genes
- (2022) Niels J. Rinzema et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Promoter-proximal CTCF binding promotes distal enhancer-dependent gene activation
- (2021) Naoki Kubo et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Enhancers predominantly regulate gene expression during differentiation via transcription initiation
- (2021) Martin S.C. Larke et al. MOLECULAR CELL
- Structure of the human Mediator-bound transcription preinitiation complex
- (2021) R. Abdella et al. SCIENCE
- Distinct properties and functions of CTCF revealed by a rapidly inducible degron system
- (2021) Jing Luan et al. Cell Reports
- Structures of the human Mediator and Mediator-bound preinitiation complex
- (2021) Xizi Chen et al. SCIENCE
- Enhancer release and retargeting activates disease-susceptibility genes
- (2021) Soohwan Oh et al. NATURE
- The structural basis for cohesin–CTCF-anchored loops
- (2020) Yan Li et al. NATURE
- Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer
- (2020) Kadir C. Akdemir et al. NATURE GENETICS
- CTCF mediates chromatin looping via N-terminal domain-dependent cohesin retention
- (2020) Elena M. Pugacheva et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- ESCO1 and CTCF enable formation of long chromatin loops by protecting cohesinSTAG1 from WAPL
- (2020) Gordana Wutz et al. eLife
- Cryo-EM structure of the human cohesin-NIPBL-DNA complex
- (2020) Zhubing Shi et al. SCIENCE
- CTCF is dispensable for immune cell transdifferentiation but facilitates an acute inflammatory response
- (2020) Grégoire Stik et al. NATURE GENETICS
- Cohesin promotes stochastic domain intermingling to ensure proper regulation of boundary-proximal genes
- (2020) Jennifer M. Luppino et al. NATURE GENETICS
- Cohesin-Dependent and -Independent Mechanisms Mediate Chromosomal Contacts between Promoters and Enhancers
- (2020) Michiel J. Thiecke et al. Cell Reports
- WAPL maintains a cohesin loading cycle to preserve cell-type-specific distal gene regulation
- (2020) Ning Qing Liu et al. NATURE GENETICS
- LHX2- and LDB1-mediated trans interactions regulate olfactory receptor choice
- (2019) Kevin Monahan et al. NATURE
- Visualizing DNA folding and RNA in embryos at single-cell resolution
- (2019) Leslie J. Mateo et al. NATURE
- Acute depletion of CTCF directly affects MYC regulation through loss of enhancer–promoter looping
- (2019) Judith Hyle et al. NUCLEIC ACIDS RESEARCH
- Live-cell imaging reveals enhancer-dependent Sox2 transcription in the absence of enhancer proximity
- (2019) Jeffrey M Alexander et al. eLife
- Highly rearranged chromosomes reveal uncoupling between genome topology and gene expression
- (2019) Yad Ghavi-Helm et al. NATURE GENETICS
- Functional dissection of the Sox9–Kcnj2 locus identifies nonessential and instructive roles of TAD architecture
- (2019) Alexandra Despang et al. NATURE GENETICS
- LADL: light-activated dynamic looping for endogenous gene expression control
- (2019) Ji Hun Kim et al. NATURE METHODS
- Absolute quantification of cohesin, CTCF and their regulators in human cells
- (2019) Johann Holzmann et al. eLife
- A Pliable Mediator Acts as a Functional Rather Than an Architectural Bridge between Promoters and Enhancers
- (2019) Laila El Khattabi et al. CELL
- The expanding phenotypes of cohesinopathies: one ring to rule them all!
- (2019) Jessica Piché et al. CELL CYCLE
- Enhancer Features that Drive Formation of Transcriptional Condensates
- (2019) Krishna Shrinivas et al. MOLECULAR CELL
- Decreased Enhancer-Promoter Proximity Accompanying Enhancer Activation
- (2019) Nezha S. Benabdallah et al. MOLECULAR CELL
- The liquid nucleome – phase transitions in the nucleus at a glance
- (2019) Amy R. Strom et al. JOURNAL OF CELL SCIENCE
- DNA loop extrusion by human cohesin
- (2019) Iain F. Davidson et al. SCIENCE
- Human cohesin compacts DNA by loop extrusion
- (2019) Yoori Kim et al. SCIENCE
- Methods for mapping 3D chromosome architecture
- (2019) Rieke Kempfer et al. NATURE REVIEWS GENETICS
- Formation of Chromatin Subcompartments by Phase Separation
- (2018) Fabian Erdel et al. BIOPHYSICAL JOURNAL
- Higher-Order Inter-chromosomal Hubs Shape 3D Genome Organization in the Nucleus
- (2018) Sofia A. Quinodoz et al. CELL
- A Muscle-Specific Enhancer RNA Mediates Cohesin Recruitment and Regulates Transcription In trans
- (2018) Pei-Fang Tsai et al. MOLECULAR CELL
- Distinct roles of cohesin-SA1 and cohesin-SA2 in 3D chromosome organization
- (2018) Aleksandar Kojic et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Coactivator condensation at super-enhancers links phase separation and gene control
- (2018) Benjamin R. Sabari et al. SCIENCE
- Real-time imaging of DNA loop extrusion by condensin
- (2018) Mahipal Ganji et al. SCIENCE
- Distinct roles of cohesin-SA1 and cohesin-SA2 in 3D chromosome organization
- (2018) Aleksandar Kojic et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Control of inducible gene expression links cohesin to hematopoietic progenitor self-renewal and differentiation
- (2018) Sergi Cuartero et al. NATURE IMMUNOLOGY
- CRISPR-Mediated Programmable 3D Genome Positioning and Nuclear Organization
- (2018) Haifeng Wang et al. CELL
- Global transcriptional activity dynamics reveal functional enhancer RNAs
- (2018) Yoon Jung Kim et al. GENOME RESEARCH
- YY1 and CTCF orchestrate a 3D chromatin looping switch during early neural lineage commitment
- (2017) Jonathan A. Beagan et al. GENOME RESEARCH
- Gene Therapy for β-Hemoglobinopathies
- (2017) Marina Cavazzana et al. MOLECULAR THERAPY
- Two independent modes of chromatin organization revealed by cohesin removal
- (2017) Wibke Schwarzer et al. NATURE
- Manipulation of nuclear architecture through CRISPR-mediated chromosomal looping
- (2017) Stefanie L. Morgan et al. Nature Communications
- SHH signaling directed by two oral epithelium-specific enhancers controls tooth and oral development
- (2017) Tomoko Sagai et al. Scientific Reports
- Glucocorticoid Receptor Binding Induces Rapid and Prolonged Large-Scale Chromatin Decompaction at Multiple Target Loci
- (2017) Alasdair W. Jubb et al. Cell Reports
- Enhancer Control of Transcriptional Bursting
- (2016) Takashi Fukaya et al. CELL
- Cohesin Releases DNA through Asymmetric ATPase-Driven Ring Opening
- (2016) Ahmed M.O. Elbatsh et al. MOLECULAR CELL
- Super-resolution imaging reveals distinct chromatin folding for different epigenetic states
- (2016) Alistair N. Boettiger et al. NATURE
- HiChIP: efficient and sensitive analysis of protein-directed genome architecture
- (2016) Maxwell R Mumbach et al. NATURE METHODS
- Dynamic and flexible H3K9me3 bridging via HP1β dimerization establishes a plastic state of condensed chromatin
- (2016) Kyoko Hiragami-Hamada et al. Nature Communications
- Formation of Chromosomal Domains by Loop Extrusion
- (2016) Geoffrey Fudenberg et al. Cell Reports
- Disruptions of Topological Chromatin Domains Cause Pathogenic Rewiring of Gene-Enhancer Interactions
- (2015) Darío G. Lupiáñez et al. CELL
- CRISPR Inversion of CTCF Sites Alters Genome Topology and Enhancer/Promoter Function
- (2015) Ya Guo et al. CELL
- RNA Exosome-Regulated Long Non-Coding RNA Transcription Controls Super-Enhancer Activity
- (2015) Evangelos Pefanis et al. CELL
- The Isl1/Ldb1 Complex Orchestrates Genome-wide Chromatin Organization to Instruct Differentiation of Multipotent Cardiac Progenitors
- (2015) Luca Caputo et al. Cell Stem Cell
- CTCF Binding Polarity Determines Chromatin Looping
- (2015) Elzo de Wit et al. MOLECULAR CELL
- Integrator mediates the biogenesis of enhancer RNAs
- (2015) Fan Lai et al. NATURE
- The Mediator complex: a central integrator of transcription
- (2015) Benjamin L. Allen et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- Getting up to speed with transcription elongation by RNA polymerase II
- (2015) Iris Jonkers et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes
- (2015) Adrian L. Sanborn et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Capture Hi-C identifies the chromatin interactome of colorectal cancer risk loci
- (2015) Roland Jäger et al. Nature Communications
- ZNF143 provides sequence specificity to secure chromatin interactions at gene promoters
- (2015) Swneke D. Bailey et al. Nature Communications
- Reactivation of Developmentally Silenced Globin Genes by Forced Chromatin Looping
- (2014) Wulan Deng et al. CELL
- 3D Trajectories Adopted by Coding and Regulatory DNA Elements: First-Passage Times for Genomic Interactions
- (2014) Joseph S. Lucas et al. CELL
- A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
- (2014) Suhas S.P. Rao et al. CELL
- Structure of Yin Yang 1 Oligomers That Cooperate with RuvBL1-RuvBL2 ATPases
- (2014) Andrés López-Perrote et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- Closing the cohesin ring: Structure and function of its Smc3-kleisin interface
- (2014) T. G. Gligoris et al. SCIENCE
- Function of YY1 in Long-Distance DNA Interactions
- (2014) Michael L. Atchison Frontiers in Immunology
- Architectural Protein Subclasses Shape 3D Organization of Genomes during Lineage Commitment
- (2013) Jennifer E. Phillips-Cremins et al. CELL
- The DNA-binding factor Ctcf critically controls gene expression in macrophages
- (2013) Tatjana Nikolic et al. Cellular & Molecular Immunology
- YY1 controls Igκ repertoire and B-cell development, and localizes with condensin on the Igκ locus
- (2013) Xuan Pan et al. EMBO JOURNAL
- Flexible Long-Range Loops in the VH Gene Region of the Igh Locus Facilitate the Generation of a Diverse Antibody Repertoire
- (2013) Jasna Medvedovic et al. IMMUNITY
- A novel regulatory element for Shh expression in the lung and gut of mouse embryos
- (2013) Nagaharu Tsukiji et al. MECHANISMS OF DEVELOPMENT
- Occupying Chromatin: Polycomb Mechanisms for Getting to Genomic Targets, Stopping Transcriptional Traffic, and Staying Put
- (2013) Jeffrey A. Simon et al. MOLECULAR CELL
- Modification of Enhancer Chromatin: What, How, and Why?
- (2013) Eliezer Calo et al. MOLECULAR CELL
- Functional roles of enhancer RNAs for oestrogen-dependent transcriptional activation
- (2013) Wenbo Li et al. NATURE
- Wapl is an essential regulator of chromatin structure and chromosome segregation
- (2013) Antonio Tedeschi et al. NATURE
- Activating RNAs associate with Mediator to enhance chromatin architecture and transcription
- (2013) Fan Lai et al. NATURE
- Position-Effect Variegation, Heterochromatin Formation, and Gene Silencing in Drosophila
- (2013) S. C. R. Elgin et al. Cold Spring Harbor Perspectives in Biology
- The Switch from Fetal to Adult Hemoglobin
- (2013) V. G. Sankaran et al. Cold Spring Harbor Perspectives in Medicine
- Controlling Long-Range Genomic Interactions at a Native Locus by Targeted Tethering of a Looping Factor
- (2012) Wulan Deng et al. CELL
- Three-Dimensional Folding and Functional Organization Principles of the Drosophila Genome
- (2012) Tom Sexton et al. CELL
- Topological domains in mammalian genomes identified by analysis of chromatin interactions
- (2012) Jesse R. Dixon et al. NATURE
- Spatial partitioning of the regulatory landscape of the X-inactivation centre
- (2012) Elphège P. Nora et al. NATURE
- Self-organization of domain structures by DNA-loop-extruding enzymes
- (2012) E. Alipour et al. NUCLEIC ACIDS RESEARCH
- Noncoding transcription within the Igh distal VH region at PAIR elements affects the 3D structure of the Igh locus in pro-B cells
- (2012) J. Verma-Gaur et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- In vitro loading of human cohesin on DNA by the human Scc2-Scc4 loader complex
- (2012) V. P. Bermudez et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Cohesin: a catenase with separate entry and exit gates?
- (2011) Kim Nasmyth NATURE CELL BIOLOGY
- Enhancer function: new insights into the regulation of tissue-specific gene expression
- (2011) Chin-Tong Ong et al. NATURE REVIEWS GENETICS
- The role of Drosophila Lamin C in muscle function and gene expression
- (2010) G. Dialynas et al. DEVELOPMENT
- LIM Domain Binding Proteins 1 and 2 Have Different Oligomeric States
- (2010) Arwen J. Cross et al. JOURNAL OF MOLECULAR BIOLOGY
- Mediator and cohesin connect gene expression and chromatin architecture
- (2010) Michael H. Kagey et al. NATURE
- The metazoan Mediator co-activator complex as an integrative hub for transcriptional regulation
- (2010) Sohail Malik et al. NATURE REVIEWS GENETICS
- Active RNA Polymerases: Mobile or Immobile Molecular Machines?
- (2010) Argyris Papantonis et al. PLOS BIOLOGY
- Histone Crosstalk between H3S10ph and H4K16ac Generates a Histone Code that Mediates Transcription Elongation
- (2009) Alessio Zippo et al. CELL
- An auxin-based degron system for the rapid depletion of proteins in nonplant cells
- (2009) Kohei Nishimura et al. NATURE METHODS
- Induced Chromosomal Proximity and Gene Fusions in Prostate Cancer
- (2009) R.-S. Mani et al. SCIENCE
- Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
- (2009) E. Lieberman-Aiden et al. SCIENCE
- Sister Chromatid Cohesion: A Simple Concept with a Complex Reality
- (2008) Itay Onn et al. Annual Review of Cell and Developmental Biology
- Global analysis of the insulator binding protein CTCF in chromatin barrier regions reveals demarcation of active and repressive domains
- (2008) S. Cuddapah et al. GENOME RESEARCH
- A genetic locus targeted to the nuclear periphery in living cells maintains its transcriptional competence
- (2008) R. Ileng Kumaran et al. JOURNAL OF CELL BIOLOGY
- Cohesin mediates transcriptional insulation by CCCTC-binding factor
- (2008) Kerstin S. Wendt et al. NATURE
- Transcriptional repression mediated by repositioning of genes to the nuclear lamina
- (2008) K. L. Reddy et al. NATURE
- Recruitment to the Nuclear Periphery Can Alter Expression of Genes in Human Cells
- (2008) Lee E. Finlan et al. PLoS Genetics
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